Identification of quantitative trait loci for rice grain element composition on an arsenic impacted soil: Influence of flowering time on genetic loci

Elements in grain crops such as iron, zinc and selenium are essential in the human diet, whereas elements such as arsenic are potentially toxic to humans. This study aims to identify quantitative trait loci (QTLs) for trace elements in rice grain. A field experiment was conducted in an arsenic enriched field site in Qiyang, China using the Bala × Azucena mapping population grown under standard field conditions. Grains were subjected to elemental analysis by inductively coupled plasma mass spectroscopy. QTLs were detected for the elemental composition within the rice grains, including for iron and selenium, which have previously been detected in this population grown at another location, indicating the stability of these QTLs. A correlation was observed between flowering time and a number of the element concentrations in grains, which was also revealed as co‐localisation between flowering time QTLs and grain element QTLs. Unravelling the environmental conditions that influence the grain ionome appears to be complex, but from the results in this study one of the major factors which controls the accumulation of elements within the grain is flowering time.     

Mapping and validation of quantitative trait loci associated with concentrations of 16 elements in unmilled rice grain

Key Message

QTLs controlling the concentrations elements in rice grain were identified in two mapping populations. The QTLs were clustered such that most genomic regions were associated with more than one element.

Abstract

In this study, quantitative trait loci (QTLs) affecting the concentrations of 16 elements in whole, unmilled rice (Oryza sativa L.) grain were identified. Two rice mapping populations, the ‘Lemont’ × ‘TeQing’ recombinant inbred lines (LT-RILs), and the TeQing-into-Lemont backcross introgression lines (TILs) were used. To increase opportunity to detect and characterize QTLs, the TILs were grown under two contrasting field conditions, flooded and irrigated-but-unflooded. Correlations between the individual elements and between each element with grain shape, plant height, and time of heading were also studied. Transgressive segregation was observed among the LT-RILs for all elements. The 134 QTLs identified as associated with the grain concentrations of individual elements were found clustered into 39 genomic regions, 34 of which were found associated with grain element concentration in more than one population and/or flooding treatment. More QTLs were found significant among flooded TILs (92) than among unflooded TILs (47) or among flooded LT-RILs (40). Twenty-seven of the 40 QTLs identified among the LT-RILs were associated with the same element among the TILs. At least one QTL per element was validated in two or more population/environments. Nearly all of the grain element loci were linked to QTLs affecting additional elements, supporting the concept of element networks within plants. Several of the grain element QTLs co-located with QTLs for grain shape, plant height, and days to heading; but did not always differ for grain elemental concentration as predicted by those traits alone. A number of interesting patterns were found, including a strong Mg–P–K complex.     

Uptake,distribution, and turnover rates of selenium in barley

The present communication elucidates initially the topographic distribution of selenium in barley grains. Then by the fluorimetric method the uptake of selenium (selenite) in 8–16 d old germinating barley was estimated. Finally by means of⁷⁵Se the anabolic and catabolic rates (turnover) of⁷⁵Se (selenite) was compared. The distribution of selenium in barley was evaluated after microdissection of barley grains. In dried grains the highest concentration was found in husk and pericarp with about 0.6 ppm Se. Then followed Scutellum with 0.4 and 0.3 ppm in embryon. The aleurone layer, embryonic leaves, and initial root did only have 0.2 ppm Se. In order to know more about the uptake and distribution of selenium in 8-d-old barley, the plants were cultivated for a further 8 d in the culture medium with variation in selenite concentration. In roots and leaves, the uptake did not arrive at saturation during the period studied since the dose-response curve increased up to 0.34 mM selenite in the medium, whereas the selenium levels were about 200 ppm in roots and 30 ppm in leaves. However, the uptake was linear, with concentration during 8 d of cultivation up to 0.84 μM selenite for grain and stem. At higher concentrations the dose-response curve diminished its slope. At 0.34 mM selenite the concentration in grain increased to 6.87 ppm and in the stem to 8.13 ppm. The uptake, distribution, and catabolic rate of selenium components in germinating barley were further evaluated by exposing the plants to 0.0492 μCi⁷⁵Se (12.6 μM selenite) for up to 4 d. Then the plants were moved to a selenium deficient medium for further 4 d. Then finally the medium was supplemented with high doses of cold selenite (0.126 mM selenite) for further 4 d. The first third period made it possible to estimate the rate of uptake. It was highest in roots (313 fmol/h/mg dw), i.e., about 10 times those of grains, stems, and leaves. The intermediate period where the barley was transferred to a selenium deficient medium made it possible to estimate the kinetics and eventual sparing mechanisms. The selenium losses were highest for leaves (39%), then followed by roots and stems (22 and 25%, respectively). The losses were lowest in grain with 9% Se losses. The losses were three times more pronounced during the first day than in the following 3 d. These data may argue that the selenium is distributed into different pools and that sparing mechanisms may be in function. The last period, i.e., the chase experiment, revealed the rate of elimination of selenium under conditions with surplus selenium. The catabolic rate was about 10 times faster in roots (169 fmol/h/mg dw) than in grains and about 8 times faster than in leaves.     

Identification of quantitative trait locus of zinc and phosphorus density in wheat (Triticum aestivum L.) grain

Zinc (Zn) is an essential micronutrient for human beings. However, Zn malnutrition has become a major problem throughout the world. Wheat is the most important food crop in the world, therefore, developing Zn-enriched wheat varieties provides an effective approach to reduce Zn malnutrition in human beings. The aim of this study was to understand the genetic control of grain Zn density in wheat and hence, to provide genetic basis for breeding wheat with high grain Zn density using molecular approach. A doubled haploid (DH) population developed from a cross between winter wheat varieties Hanxuan10 and Lumai 14 was used to identify quantitative trait loci (QTLs) for Zn concentration and content in wheat grains. In addition, phosphorus (P) concentration and content in wheat grain were also investigated to examine possible interactions between these two nutrients. The wheat grains used in this study were harvested from the plants grown under normal condition in a field trial. We found the grain Zn concentrations of the DH population varied from 25.9 to 50.5 mg/kg and the Zn content varied from 0.90 to 2.21 μg/seed. The grain P concentrations of the DH population varied from 0.258 to 0.429 mg/kg, and the P contents varied from 0.083 to 0.186 mg/seed. A significant positive correlation was observed between Zn and P density in this experiment. The results showed that both grain Zn and P densities were controlled by polygenes. Four and seven QTLs for Zn concentration and Zn content were detected, respectively. All the four QTLs for Zn concentration co-located with the QTLs for Zn content, suggesting a possibility to improve both grain Zn concentration and content simultaneously. Four and six QTLs for P concentration and P content were detected, respectively. The two QTLs for grain Zn concentration on chromosomes 4A and 4D co-located with the QTLs for P concentration. The four QTLs for grain Zn content on chromosome 2D, 3A and 4A co-located with the QTLs for P contents, reflecting the positive correlations between the grain Zn and P density, and providing possibility of improving grain micro- and macronutrient density simultaneously in wheat. In order to improve human health, the effect of P–Zn relation in grain on the Zn bioavailability should also be considered in the future work.     

Development of nutritious rice with high zinc/selenium and low cadmium in grains through QTL pyramiding

Enriching zinc (Zn) and selenium (Se) levels, while reducing cadmium (Cd) concentration in rice grains is of great benefit for human diet and health. Large natural variations in grain Zn, Se, and Cd concentrations in different rice accessions enable Zn/Se‐biofortification and Cd‐minimization through molecular breeding. Here, we report the development of new elite varieties by pyramiding major quantitative trait loci (QTLs) that significantly contribute to high Zn/Se and low Cd accumulation in grains. A chromosome segment substitution line CSSL^GCC7 with the PA64s‐derived GCC7 allele in the 93‐11 background, exhibited steadily higher Mn and lower Cd concentrations in grains than those of 93‐11. This elite chromosome segment substitution line (CSSL) was used as the core breeding material to cross with CSSLs harboring other major QTLs for essential mineral elements, especially CSSL^GZC6 for grain Zn concentration and CSSL^GSC5 for grain Se concentration. The CSSL^GCC7+GZC6 and CSSL^GCC7+GSC5 exhibited lower Cd concentration with higher Zn and Se concentrations in grains, respectively. Our study thus provides elite materials for rice breeding targeting high Zn/Se and low Cd concentrations in grains.     

Application of sodium selenate to cowpea (Vigna unguiculata L.) increases shoot and grain Se partitioning with strong genotypic interactions

BackgorundCowpea is a crop widely used in developing countries due its rusticity. Besides its rich genotypic variability, most breeding programs do not explore its potential to improve elements uptake. Selenium (Se) is a scarce element in most soils, resulting in its deficiency being common in human diets. This study aimed to evaluate the interaction between biofortification with Se and genotypic variation in cowpea, on the concentrations of Se in roots, leaves + stem and grains.MethodsTwenty-nine cowpea genotypes were grown in a greenhouse in the absence (control) and presence of Se (12.5 μg Se kg⁻¹ soil) as sodium selenate, in fully randomized scheme. The plants were cultivated until grains harvest. The following variables were determined: roots dry weight (g), leaves + stems dry weight (g), grains dry weight (g), Se concentration (mg kg⁻¹) in roots, leaves + stems and grains, and Se partitioning to shoots and grains.ResultsSelenium application increased the Se concentration in roots, leaves + stems and grains in all genotypes. At least twofold variation in grain Se concentration was observed among genotypes. Selenium application did not impair biomass accumulation, including grain dry weight. Genotype “BRS Guariba” had the largest Se concentration in grains and leaves + stems. Genotype MNC04-795 F-158 had the largest partitioning of Se to shoots and grain, due to elevated dry weights of leaves + stems and grain, and high Se concentrations in these tissues.ConclusionThis information might be valuable in future breeding programs to select for genotypes with better abilities to accumulate Se in grain to reduce widespread human Se undernutrition.     

Anthesis date mainly explained correlations between post-anthesis leaf senescence, grain yield, and grain protein concentration in a winter wheat population segregating for flowering time QTLs

The genetic variability of the duration of leaf senescence during grain filling has been shown to affect both carbon and nitrogen acquisition. In particular, maintaining green leaves during grain filling possibly leads to increased grain yield, but its associated effect on grain protein concentration has not been studied. The aim of this study was to dissect the genetic factors contributing to correlations observed at the phenotypic level between leaf senescence during grain filling, grain protein concentration, and grain yield in winter wheat. With this aim in view, an analysis of quantitative trait locus (QTL) co-locations for these traits was carried out on a doubled haploid mapping population grown in a large multienvironment trial network. Pleiotropic QTLs affecting leaf senescence and grain yield and/or grain protein concentration were identified on chromosomes 2D, 2A, and 7D. These were associated with QTLs for anthesis date, showing that the phenotypic correlations with leaf senescence were mainly explained by flowering time in this wheat population. Study of the allelic effects of these pleiotropic QTLs showed that delaying leaf senescence was associated with increased grain yield or grain protein concentration depending on the environments considered. It is proposed that this differential effect of delaying leaf senescence on grain yield and grain protein concentration might be related to the nitrogen availability during the post-anthesis period. It is concluded that the benefit of using leaf senescence as a selection criterion to improve grain protein concentration in wheat cultivars may be limited and would largely depend on the targeted environments, particularly on their nitrogen availability during the post-anthesis period.     

Identification of Quantitative Trait Loci for Grain Appearance and Milling Quality Using a Doubled-Haploid Rice Population

Improving grain quality, which is composed primarily of the appearance of the grain and its cooking and milling attributes, is a major objective of many rice-producing areas in China. In the present study, we conducted a marker-based genetic analysis of the appearance and milling quality of rice （Oryza sativa L.） grains using a doubled-haploid population derived from a cross between the indica inbred Zhenshan 97 strain and the japonica inbred Wuyujing 2 strain. Quantitative trait locus （QTL） analysis using a mixed linear model approach revealed that the traits investigated were affected by one to seven QTLs that individually explained 4.0%-30.7% of the phenotypic variation. Cumulatively, the QTL for each trait explained from 12.9% to 61.4% of the phenotypic variation. Some QTLs tended to have a pleiotropic or location-linked association as a cause of the observed phenotypic correlations between different traits. Improvement of the characteristics of grain appearance and grain weight, as well as an improvement in the milling quality of rice grains, would be expected by a recombination of different QTLs using marker-assisted selection.     

Genetic bases of appearance quality of rice grains in Shanyou 63, an elite rice hybrid

Appearance quality of the rice grain represents a major problem of rice production in many rice-producing areas of the world, especially in hybrid rice production in China. In this study, we conducted a molecular marker-based genetic analysis of the traits that are determinants of the appearance quality of rice grains, including traits specifying grain shape and endosperm opacity. The materials used in the analysis included an F_2:3 population and an F₁₀ recombinant inbred line population from a cross between the parents of Shanyou 63, the most widely grown rice hybrid in China. Molecular marker-based QTL (quantitative trait locus) analyses revealed that grain length and grain width were each controlled by a major QTL accounting for a very large proportion of the genetic variation, plus one or two minor QTLs each explaining a small proportion of the genetic variation. The major QTLs can be detected in both the F_2:3 and recombinant inbred line population using both paddy rice and brown rice, whereas the minor QTLs were detected only occasionally. The QTL located in the interval of RG393-C1087 on chromosome 3 is the major locus for grain length, and the one in the interval RG360-C734a on chromosome 5 plays a major role in determining grain width. Similarly, white belly, which largely determines the opacity of the endosperm, is almost entirely controlled by a major locus on chromosome 5, located in the same genomic region as the major QTL for grain width. The implications of the results with respect to hybrid rice improvement were discussed. Received: 20 February 2000 / Accepted: 21 March 2000     

Identification of quantitative trait loci for grain quality in an advanced backcross population derived from the<Emphasis Type="Italic"> Oryza sativa</Emphasis> variety IR64 and the wild relative<Emphasis Type="Italic"> O. rufipogon</Emphasis>

The objective of this study was to identify quantitative trait loci (QTLs) associated with grain quality in rice. Two hundred eighty-five BC₂F₂ families developed from an interspecific cross between cv IR64 and Oryza rufipogon (IRGC 105491) were evaluated for 14 seed quality traits. A total of 165 markers consisting of 131 single sequence repeats and 34 restriction fragment length polymorphism markers were used to create a genetic linkage map spanning the 12 rice chromosomes. Twenty-three independent QTLs were identified using single point analysis, interval mapping, and composite interval mapping. These loci consisted of one QTL for filled rough/total rough rice ratio, two for grain density, one for percentage of de-husked rice grains, two for percentage of green rice grains, three for percentage of damaged-yellow rice grains, two for percentage of red rice grains, one for milled rice recovery, three for head rice recovery, four for broken rice grains, two for crushed rice grains, one for amylose content, and one for gel consistency. For most of the QTLs identified in this study, the O. rufipogon-derived allele contributed an undesirable effect. For amylose content and gel consistency, the O. rufipogon allele may be useful in an IR64 background, depending on the cultural preferences of the consumer. Careful selection against the regions associated with negative effects will be required to avoid unwanted grain quality characteristics during the development of improved varieties for yield and yield components using introgressions from O. rufipogon.Communicated by D. Mackill     

T-2 Toxin Contamination in Grains and Selenium Concentration in Drinking Water and Grains in Kaschin–Beck Disease Endemic Areas of Qinghai Province

It has been strongly suggested that two factors are involved in the development of Kaschin?CBeck Disease (KBD), namely grains contamination with T-2 toxin and selenium deficiency. So our team undertook a survey about grains and drinking water in three rural KBD endemic villages and one non-KBD village in Qinghai Province. The level of T-2 toxin contamination in 364 grain samples was assayed using an ELISA kit. The selenium concentration in these grains and 15 drinking water samples from three KBD endemic villages were determined using the 2,3-diaminonaphthalene fluorometric assay. The results revealed that the level of T-2 toxin contamination in the samples from three KBD endemic villages was relatively high with an average level of 78.91?ng/g in wheat and 47.47?ng/g in flour. The T-2 toxin level in samples from the non-KBD village (12.23?ng/g) was significantly lower than that of local grains from the three KBD endemic villages. The average selenium content in wheat and flour from KBD areas was 0.0045 and 0.0067???g/g, respectively. The selenium concentration in local grain samples was significantly lower than that in samples from the non-KBD village (0.0604???g/g). In addition, the selenium concentration in drinking water from three KBD endemic villages was also low (0.156???g/L). These results support a potential role of T-2 toxin contamination and selenium deficiency in KBD. Compared with non-KBD endemic areas, health hazards in grains and in the environment of KBD endemic areas were observed.     

Temperature-dependent QTLs in <Emphasis Type="Italic">indica</Emphasis> alleles for improving grain quality in rice: increased prominence of QTLs responsible for reduced chalkiness under high-temperature conditions

Quantitative trait loci (QTLs) for the apparent quality of brown rice under high temperatures during ripening were analyzed using chromosomal segment substitution lines. Segments from the indica cultivar Habataki were substituted into a japonica cultivar with a Sasanishiki background. We found the following two QTLs for increasing grain quality in the Habataki allele on chromosome 3: (1) qTW3-2, located near the marker RM14702, decreased the percentage of total white immature (TWI) grains, and (2) qRG3-2, located near RM3766, increased the percentage of regular grains. The effects of these two QTLs were more obvious under high-temperature ripening conditions; hence, these loci are considered QTLs not only for reducing TWI grains but also for increasing high-temperature tolerance. Additionally, we found two QTLs, i.e., qTW3-1 and qRG3-1, responsible for reduced grain quality near RM14314 on chromosome 3. Although the QTL for narrow grains in the Habataki allele qNG3 was genetically linked to qTW3-2, the effect was only slightly significant, and the length/width ratio of qNG3-carrying grains was within the range observed in widely grown japonica cultivars. Incorporating the Habataki region, including qRG3-2 and qTW3-2 but not qTW3-1 and qRG3-1, in addition to previously reported grain quality QTLs in breeding japonica cultivars will improve high-temperature tolerance and grain quality.     

Genome-wide association mapping for grain manganese in rice (Oryza sativa L.) using a multi-experiment approach

Manganese (Mn) is an essential trace element for plants and commonly contributes to human health; however, the understanding of the genes controlling natural variation in Mn in crop plants is limited. Here, the integration of two of genome-wide association study approaches was used to increase the identification of valuable quantitative trait loci (QTL) and candidate genes responsible for the concentration of grain Mn across 389 diverse rice cultivars grown in Arkansas and Texas, USA, in multiple years. Single-trait analysis was initially performed using three different SNP datasets. As a result, significant loci could be detected using the high-density SNP dataset. Based on the 5.2 M SNP dataset, major QTLs were located on chromosomes 3 and 7 for Mn containing six candidate genes. In addition, the phenotypic data of grain Mn concentration were combined from three flooded-field experiments from the two sites and 3 years using multi-experiment analysis based on the 5.2 M SNP dataset. Two previous QTLs on chromosome 3 were identified across experiments, whereas new Mn QTLs were identified that were not found in individual experiments, on chromosomes 3, 4, 9 and 11. OsMTP8.1 was identified in both approaches and is a good candidate gene that could be controlling grain Mn concentration. This work demonstrates the utilisation of multi-experiment analysis to identify constitutive QTLs and candidate genes associated with the grain Mn concentration. Hence, the approach should be advantageous to facilitate genomic breeding programmes in rice and other crops considering QTLs and genes associated with complex traits in natural populations.Subject terms: Genome-wide association studies, Plant breeding     

A QTL located on chromosome 3D enhances the selenium concentration of wheat grain by improving phytoavailability and root structure

Background and aims

As an essential mineral element, selenium (Se) plays a critical role in human health. Given the low concentrations (<100 mg Se kg–1) of Se in staple crops, the identification of genetic resources with enriched Se, as well as the genes controlling Se concentration, is valuable for the marker-assisted selection of Se-rich varieties.

Methods

We determined the chromosomal quantitative trait (QTL) for Se concentration over two consecutive plant growth cycles using recombinant inbred lines (RILs) treated with two different concentrations of Se under both field-grown and hydroponic conditions.

Results

Several QTL for Se concentration were detected across the different treatments. Significant genotypic variation in the tissues of the RIL was found at Se-deficicencycondition. Notably, a QTL located on 3D (interval 214.00–218.00, Qse.sau-3D) affected root length and Se concentration in the leaves and grains, suggesting the existence of the same allele with distinctly different functions. However, the QTL for the agronomic traits measured (plant height, flowering time, and tillering number) and Se concentration were not found to be located on the same chromosomal regions, suggesting that marker-assisted selection for both traits is feasible. Se concentrations in the grains were primarily determined by the mineral transport efficiency of the lines, and the line with the highest Se concentration in the grains always possessed larger, more fibrous root systems. The concentrations of Se in the plant tissues were in the order of: root > stem > grain.

Conclusions

This is the first study to document a Se-rich synthetic wheat line, and root structure and Se grain concentration was strongly affected by QTL located on 3D.

     

Effects of Different Selenium Application Methods on Wheat (<i>Triticum aestivum</i> L.) Biofortification and Nutritional Quality

Mineral nutrient malnutrition, especially deficiency in selenium (Se), affects the health of approximately 1 billion people worldwide. Wheat, a staple food crop, plays an important role in producing Se-enriched foodstuffs to increase the Se intake of humans. This study aimed to evaluate the effects of different Se application methods on grain yield and nutritional quality, grain Se absorption and accumulation, as well as 14 other trace elements concentrations in wheat grains. A sand culture experiment was conducted via a completely randomized 3 × 2 × 1 factorial scheme (three Se levels × two methods of Se application, foliar or soil × one Se sources, selenite), with two wheat cultivars (Guizi No.1, Chinese Spring). The results showed that both foliar Se and soil Se application methods had effects on wheat pollination. Foliar Se application resulted in early flowering of wheat, while soil Se application caused early flowering of wheat at low Se levels (5 mg kg⁻¹ ) and delayed wheat flowering at high selenium levels (10 mg kg⁻¹ ), respectively. For trace elements, human essential trace elements (Fe, Zn, Mn, Cu, Cr, Mo, Co and Ni) concentrations in wheat grains were dependent of Se application methods and wheat cultivars. However, toxic trace elements (Cd, Pb, Hg, As, Li and Al) concentrations can be decreased by both methods, indicating a possible antagonistic effect. Moreover, both methods increased Se concentrations, and improved grain yield and nutritional quality, while the foliar application was better than soil. Accordingly, this study provided useful information concerning nutritional biofortification of wheat, indicating that it is feasible to apply Se to conduct Se biofortification, inhibit the heavy metal elements concentrations and improve yield and quality in crops, which caused human health benefits.     

灌浆期不同水分处理对玉米籽粒蛋白质及其组分和相关酶活性的影响

蛋白质作为氮素代谢的终极产物,与玉米(Zea mays)籽粒品质呈正相关关系,其生物合成主要在硝酸还原酶(NRase)、谷氨酰胺合成酶(GS)、谷氨酸脱氢酶(GDH)等一系列酶催化下完成,受制于品种自身遗传特性及环境因素,栽培管理措施和生态环境条件对玉米品质具有十分重要的影响。关于土壤水分供应状况对玉米籽粒主要品质成分的分布、积累动态和相关酶活性的影响的研究尚少见报道。以两种不同类型玉米:普通玉米‘掖单22’和高油玉米‘高油115’为研究对象,采用防雨棚池栽试验。水分处理以开花期为界线,设置3种水分处理,花后不浇水(W0)、花后浇1水(灌浆期,W1)、花后浇3水(灌浆期、乳熟期、蜡熟期,W2)。结果表明:两种类型玉米籽粒蛋白质及其组分含量的积累动态基本一致,且不受土壤水分供应状况的影响。玉米籽粒蛋白质及清蛋白、谷蛋白含量,均为‘高油115’较高,球蛋白含量为‘掖单22’较高,醇溶蛋白两类型玉米含量相近。在不同水分供应条件下,两种类型玉米叶片中NRase、GS酶活性和籽粒中GS、GDH酶活性的变化动态一致,NRase酶活性自灌浆初期至成熟期一直下降,GS、GDH酶活性呈单峰曲线,在授粉后20~40 d达到高峰,充足的水分供应有利于酶的活性维持较高水平;玉米叶片中NRase酶活性,‘掖单22’高于‘高油115’,叶片GS和籽粒GDH酶活性显著低于‘高油115’。研究表明:用玉米叶片中NRase和GS活性的高低表征籽粒蛋白质含量的高低不确切,土壤水分条件与不同类型玉米穗位叶和籽粒中GS 和GDH活性关系密切。     

水稻产量及其构成因子对空气CO2浓度增高响应的QTL分析

自由空气CO2浓度增加设施（Free air carbon dioxide enrichment．FACE）使得实际地模拟未来植物生长所处的CO2浓度增加环境变为可能。FACE下．作物生长和产量发生不同程度的加速和提高,而分析作物产量因子对CO2浓度增加响应的遗传基础将有利于对CO2环境变化做出敏感响应的遗传特性的认识,有利于适合未来空气CO2浓度增加环境的高产品种的培育。以粳稻品种Asominori与籼稻品种IR24的杂交组合所衍生的染色体片段置换系（CSSLs）为材料进行田间试验,分别在FACE（约570umol CO2／mol）和正常大气（约370umol CO2／mol）下对籽粒产量及其构成因子等数量性状位点（QTL）进行了分析。结果表明,在FACE下,Asominori和IR24的有效穗数、穗粒数和单株籽粒产量均显著高于对照下的,并且FACE下,65个置换系的变幅范围均大于对照下的;在第1．2,4,6．7,9和12染色体上检测到LOD值在2．5—5．7范围内的控制上述产量性状的20个QTL．其中有3个可以同时在FACE和正常大气下检测到．其余的则只是在某一种CO2环境下检测到。此外,还检测到2个QTL（qFT12 and qGP4）存在着与环境的加性互作效应。可以推论．空气中CO2浓度的增加诱导了部分对CO2浓度敏感的QTL表达,控制水稻产量性状的QTL与CO2增加的环境发生了互作效应。预计利用分子标记辅助育种途径可以培育出适用于未来CO2浓度增加环境下的高产水稻品种。     

Gains in QTL detection using an ultra-high density SNP map based on population sequencing relative to traditional RFLP/SSR markers

Huge efforts have been invested in the last two decades to dissect the genetic bases of complex traits including yields of many crop plants, through quantitative trait locus (QTL) analyses. However, almost all the studies were based on linkage maps constructed using low-throughput molecular markers, e.g. restriction fragment length polymorphisms (RFLPs) and simple sequence repeats (SSRs), thus are mostly of low density and not able to provide precise and complete information about the numbers and locations of the genes or QTLs controlling the traits. In this study, we constructed an ultra-high density genetic map based on high quality single nucleotide polymorphisms (SNPs) from low-coverage sequences of a recombinant inbred line (RIL) population of rice, generated using new sequencing technology. The quality of the map was assessed by validating the positions of several cloned genes including GS3 and GW5/qSW5, two major QTLs for grain length and grain width respectively, and OsC1, a qualitative trait locus for pigmentation. In all the cases the loci could be precisely resolved to the bins where the genes are located, indicating high quality and accuracy of the map. The SNP map was used to perform QTL analysis for yield and three yield-component traits, number of tillers per plant, number of grains per panicle and grain weight, using data from field trials conducted over years, in comparison to QTL mapping based on RFLPs/SSRs. The SNP map detected more QTLs especially for grain weight, with precise map locations, demonstrating advantages in detecting power and resolution relative to the RFLP/SSR map. Thus this study provided an example for ultra-high density map construction using sequencing technology. Moreover, the results obtained are helpful for understanding the genetic bases of the yield traits and for fine mapping and cloning of QTLs.     

玉米SSR连锁图谱构建及叶面积的QTL定位

叶片是玉米进行光合作用的主要器官,叶面积的大小(尤其是穗三叶面积)对于玉米干物质的积累及产量形成起着至关重要的作用。研究玉米叶面积的遗传基础对于指导玉米高产育种具有理论意义。文章以两个叶面积差异显著的亲本478×武312为基础材料所构建的218个F8代的重组自交系为作图群体,构建了一张包含184个SSR标记的遗传连锁图谱,图谱总长度为2084.1cM,平均图距为11.3cM。通过两年的田间试验对玉米叶面积(穗三叶)进行了QTL定位分析。两年共定位到7个和叶面积相关的QTL位点,2006年定位到4个QTL位点;2007年定位到3个QTL位点。在第2染色体umc1542-umc1518标记区间发现一个主效QTL位点,该位点可以在两年同时检测到,两年分别解释12.5%和17.3%的表型变异。该位点能稳定地检测到且具有较大的贡献率,可能会在玉米叶面积分子标记辅助选择上有所应用。     

Detection of quantitative trait loci for agronomic,yield, grain and disease characters in spring barley (Hordeum vulgare L.)

Quantitative trait loci (QTLs) have been revealed for characters in a segregating population from a spring barley cross between genotypes adapted to North-West Europe. Transgressive segregation was found for all the characters, which was confirmed by the regular detection of positive and negative QTLs from both parents. A QTL for all the agronomic, yield and grain characters measured except thousand grain weight was found in the region of the denso dwarfing gene locus. There were considerable differences between the location of QTLs found in the present study and those found in previous studies of North American germ plasm, revealing the diversity between the two gene pools. Thirty-one QTLs were detected in more than one environment for the 13 characters studied, although many more were detected in just one environment. Whilst biometrical analyses suggested the presence of epistasis in the genetic control of some characters, there was little evidence of interactions between the QTLs apart from those associated with yield. QTLs of large effect sometimes masked the presence of QTLs of smaller effect.